pbasting

PhD Candidate at University of Georgia

University of GeorgiaAthens, GA

Pinned Repositories

mcclintock
Meta-pipeline to identify transposable element insertions using next generation sequencing data
Language:Python93 16 8430
bioconda-recipes
Conda recipes for the bioconda channel.
Language:Shell1.6k 96 1.9k3.3k
cactus
Official home of genome aligner based upon notion of Cactus graphs
Language:C0 1 00
Gene-Transposition-Patterns
Mrazek lab: Uses synteny between closely related species to determine rate of transposition of genes within given functional categories
Language:C++0 1 10
ISEScan
A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
Language:Python0 1 01
NodeStat
Script for parsing and displaying node status information of the HPC Sapelo2 at UGA.
Language:Python11 1 10
RATT-with-GFF
RATT-with-GFF enables Rapid Annotation Transfer Tool (RATT) to be used with a GFF as your annotation file. RATT is a great tool for transferring annotations from one genome to another, but requires the annotations be in EMBL format. This pipeline is designed to use existing file conversion tools in order to run RATT with GFF annotations files
Language:Python7 1 55
samplot
Plot structural variant signals from many BAMs and CRAMs
Language:Python0 1 02
SeqSat
produces a saturation curve for RNAseq datasets
Language:Python1 2 00
SMALR
SMALR: a framework for single-molecule level interrogation of the methylation status of SMRT reads.
Language:Python0 1 00

pbasting/NodeStat
Script for parsing and displaying node status information of the HPC Sapelo2 at UGA.
Language:Python11 1 10
pbasting/RATT-with-GFF
RATT-with-GFF enables Rapid Annotation Transfer Tool (RATT) to be used with a GFF as your annotation file. RATT is a great tool for transferring annotations from one genome to another, but requires the annotations be in EMBL format. This pipeline is designed to use existing file conversion tools in order to run RATT with GFF annotations files
Language:Python7 1 55
pbasting/SeqSat
produces a saturation curve for RNAseq datasets
Language:Python1 2 00
pbasting/cactus
Official home of genome aligner based upon notion of Cactus graphs
Language:C0 1 00
pbasting/Gene-Transposition-Patterns
Mrazek lab: Uses synteny between closely related species to determine rate of transposition of genes within given functional categories
Language:C++0 1 10
pbasting/ISEScan
A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
Language:Python0 1 01
pbasting/samplot
Plot structural variant signals from many BAMs and CRAMs
Language:Python0 1 02
pbasting/SMALR
SMALR: a framework for single-molecule level interrogation of the methylation status of SMRT reads.
Language:Python0 1 00